miRNA display CGI


Results 1 - 16 of 16 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
3519 3' -59.6 NC_001623.1 + 105507 0.66 0.714253
Target:  5'- ---uAC-GCCGGUCCAGCcGCGGcCGUa -3'
miRNA:   3'- uuuuUGcCGGCCGGGUUGcCGCC-GCA- -5'
3519 3' -59.6 NC_001623.1 + 131817 0.66 0.690321
Target:  5'- uGAAGACGGCUGGCUgcgacugcuugaaGACGGCugGGCu- -3'
miRNA:   3'- -UUUUUGCCGGCCGGg------------UUGCCG--CCGca -5'
3519 3' -59.6 NC_001623.1 + 95225 0.66 0.684291
Target:  5'- aGAGAACGcGCCGGCUUAugaAgGGCGaCGUg -3'
miRNA:   3'- -UUUUUGC-CGGCCGGGU---UgCCGCcGCA- -5'
3519 3' -59.6 NC_001623.1 + 6277 0.67 0.664088
Target:  5'- uGGAGCGGgCGGCaauucagacaUCGAUGGUGGUGg -3'
miRNA:   3'- uUUUUGCCgGCCG----------GGUUGCCGCCGCa -5'
3519 3' -59.6 NC_001623.1 + 37354 0.67 0.661047
Target:  5'- --cGGCGaCCGGgcCCCAgggcgcuuguugguGCGGCGGCGg -3'
miRNA:   3'- uuuUUGCcGGCC--GGGU--------------UGCCGCCGCa -5'
3519 3' -59.6 NC_001623.1 + 40705 0.67 0.649881
Target:  5'- ---cGCGGCgGGUCCAACuugccgcaaaacuGCGGCGa -3'
miRNA:   3'- uuuuUGCCGgCCGGGUUGc------------CGCCGCa -5'
3519 3' -59.6 NC_001623.1 + 120762 0.67 0.633612
Target:  5'- --uGACGGCCagcgcuuugucGGCCaauuuCGGCGGCa- -3'
miRNA:   3'- uuuUUGCCGG-----------CCGGguu--GCCGCCGca -5'
3519 3' -59.6 NC_001623.1 + 42501 0.67 0.613276
Target:  5'- cAAGACGGCCGacgacgacGCgUAcACGGUGGCGa -3'
miRNA:   3'- uUUUUGCCGGC--------CGgGU-UGCCGCCGCa -5'
3519 3' -59.6 NC_001623.1 + 100882 0.68 0.603125
Target:  5'- -cGGACGG-CGGUUCAauaaGCGGCGcGCGUg -3'
miRNA:   3'- uuUUUGCCgGCCGGGU----UGCCGC-CGCA- -5'
3519 3' -59.6 NC_001623.1 + 131884 0.68 0.602111
Target:  5'- --cGACGGCUGagagacaGCCUguGGCGGCGGCu- -3'
miRNA:   3'- uuuUUGCCGGC-------CGGG--UUGCCGCCGca -5'
3519 3' -59.6 NC_001623.1 + 101658 0.68 0.559805
Target:  5'- ---uGCGGUCGcuuugucuaaccauGCCCGuguCGGCGGUGUg -3'
miRNA:   3'- uuuuUGCCGGC--------------CGGGUu--GCCGCCGCA- -5'
3519 3' -59.6 NC_001623.1 + 89805 0.69 0.523239
Target:  5'- ---uGCGGCCaGGUcgcuggauguuaCCcGCGGCGGCGa -3'
miRNA:   3'- uuuuUGCCGG-CCG------------GGuUGCCGCCGCa -5'
3519 3' -59.6 NC_001623.1 + 65711 0.69 0.502894
Target:  5'- -uGAGCGGCCGGCgaauugaCCGcguUGGCGGCc- -3'
miRNA:   3'- uuUUUGCCGGCCG-------GGUu--GCCGCCGca -5'
3519 3' -59.6 NC_001623.1 + 37360 0.71 0.429817
Target:  5'- -cGAugGGCUGGCaCCgGACGGCaGGCa- -3'
miRNA:   3'- uuUUugCCGGCCG-GG-UUGCCG-CCGca -5'
3519 3' -59.6 NC_001623.1 + 11930 0.72 0.370566
Target:  5'- ---cACGGUCGGCgCCGugGcGCGGCa- -3'
miRNA:   3'- uuuuUGCCGGCCG-GGUugC-CGCCGca -5'
3519 3' -59.6 NC_001623.1 + 34110 1.05 0.001938
Target:  5'- aAAAAACGGCCGGCCCAACGGCGGCGUg -3'
miRNA:   3'- -UUUUUGCCGGCCGGGUUGCCGCCGCA- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.